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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ), 'gf_id' => 'HOM05D001026', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001026' ), 'data_identifier' => 'HOM05D001026', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001026', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p28380' => 'bna', 'A05p06490' => 'bna', 'A07p10680' => 'bna', 'A08p05090' => 'bna', 'A08p05130' => 'bna', 'A08p05140' => 'bna', 'A08p37400' => 'bna', 'A10p01850' => 'bna', 'Aa31LG1G9220' => 'aar', 'Aa31LG5G19690' => 'aar', 'Aa31LG6G8880' => 'aar', 'Aa31LG9G14700' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.482' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.1520' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4732' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2278' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.2118' => 'aag', 'Actinidia10346' => 'ach', 'Actinidia21100' => 'ach', 'Actinidia21101' => 'ach', 'Actinidia29970' => 'ach', 'Actinidia30796' => 'ach', 'Actinidia37311' => 'ach', 'Actinidia37312' => 'ach', 'Actinidia37314' => 'ach', 'Actinidia38514' => 'ach', 'Ah.05g169650' => 'amhyb', 'Ah.05g169670' => 'amhyb', 'Ah.07g204130' => 'amhyb', 'Ah.09g230140' => 'amhyb', 'AL1G12820' => 'aly', 'AL1G49940' => 'aly', 'AL4G37510' => 'aly', 'AL6G41470' => 'aly', 'Aqoxy2G03248' => 'aox', 'Aqoxy6G00080' => 'aox', 'Aqoxy6G00082' => 'aox', 'Aqoxy7G02694' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1274C3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8UPE10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5V4Y1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M8RGP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ0MJA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QQUE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TNRR0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH8Y2A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z84UIM' => 'arhy', 'AT1G03310' => 'ath', 'AT1G35220' => 'ath', 'AT2G39930' => 'ath', 'AT4G09020' => 'ath', 'ATR0171G036' => 'atr', 'ATR0626G365' => 'atr', 'ATR0684G064' => 'atr', 'ATR0684G075' => 'atr', 'Atru.chr13.1115' => 'acertr', 'Atru.chr13.1116' => 'acertr', 'Atru.chr5.1362' => 'acertr', 'Atru.chr7.979' => 'acertr', 'AUR62002608' => 'cqu', 'AUR62018974' => 'cqu', 'AUR62018975' => 'cqu', 'AUR62021335' => 'cqu', 'AUR62027815' => 'cqu', 'AUR62027816' => 'cqu', 'AUR62030031' => 'cqu', 'AUR62033250' => 'cqu', 'BcaB01g02382' => 'bca', 'BcaB01g02825' => 'bca', 'BcaB02g09070' => 'bca', 'BcaB03g13886' => 'bca', 'BcaB07g32536' => 'bca', 'BcaB07g32539' => 'bca', 'BcaC01g04738' => 'bca', 'BcaC05g24545' => 'bca', 'BcaC05g24547' => 'bca', 'BcaC05g24643' => 'bca', 'BcaC05g26968' => 'bca', 'BcaC06g35430' => 'bca', 'BcaC06g36791' => 'bca', 'BcaC07g36972' => 'bca', 'BcaC07g37165' => 'bca', 'BcaNung07279' => 'bca', 'BolC3t15740H' => 'bol', 'BolC4t22374H' => 'bol', 'BolC5t28961H' => 'bol', 'BolC5t31548H' => 'bol', 'BolC7t42122H' => 'bol', 'BolC8t46852H' => 'bol', 'BolC8t47353H' => 'bol', 'BolC8t47354H' => 'bol', 'BraA03t12043Z' => 'bra', 'BraA05t19617Z' => 'bra', 'BraA07t28862Z' => 'bra', 'BraA08t32527Z' => 'bra', 'BraA08t32531Z' => 'bra', 'BraA08t35637Z' => 'bra', 'BraA10t42459Z' => 'bra', 'C03p34310' => 'bna', 'C04p07570' => 'bna', 'C05p01830' => 'bna', 'C05p28240' => 'bna', 'C05p62190' => 'bna', 'C07p16280' => 'bna', 'C08p00520' => 'bna', 'C08p05370' => 'bna', 'C08p05380' => 'bna', 'CAN.G1173.1' => 'can', 'CAN.G2983.1' => 'can', 'CAN.G33.1' => 'can', 'CAN.G33.2' => 'can', 'CAN.G33.3' => 'can', 'CAN.G33.4' => 'can', 'CAN.G79.69' => 'can', 'CAN.G81.7' => 'can', 'CAN.G962.5' => 'can', 'CANSAT64G2664' => 'cansat', 'CANSAT64G2709' => 'cansat', 'CANSAT80G1415' => 'cansat', 'CANSAT80G2343' => 'cansat', 'CARHR002620' => 'chi', 'CARHR005920' => 'chi', 'CARHR134850' => 'chi', 'CARHR260080' => 'chi', 'CARHR286320' => 'chi', 'Carub.0001s0242' => 'cru', 'Carub.0001s3287' => 'cru', 'Carub.0004s2206' => 'cru', 'Carub.0006s2761' => 'cru', 'Ca_06108_v3' => 'car', 'Ca_08568_v3' => 'car', 'Ca_16037_v3' => 'car', 'Ca_16276_v3' => 'car', 'Ca_17409_v3' => 'car', 'Ca_28811_v3' => 'car', 'CBR_g22242' => 'cbr', 'CBR_g494' => 'cbr', 'CBR_g55382' => 'cbr', 'CBR_g5699' => 'cbr', 'CBR_g640' => 'cbr', 'Cc00_g16180' => 'ccan', 'Cc00_g30410' => 'ccan', 'Cc00_g33240' => 'ccan', 'Cc06_g22150' => 'ccan', 'Cc08_g00630' => 'ccan', 'Cc10_g06640' => 'ccan', 'Cc10_g06660' => 'ccan', 'Cc10_g11550' => 'ccan', 'CDE02G1450' => 'cde', 'CDE06G1219' => 'cde', 'CDE06G1501' => 'cde', 'CDE10G0833' => 'cde', 'CDE10G1069' => 'cde', 'Cfa006105' => 'cfa', 'Cfa017894' => 'cfa', 'Cfa020723' => 'cfa', 'Ciclev10000130m.g' => 'ccl', 'Ciclev10000347m.g' => 'ccl', 'Ciclev10007489m.g' => 'ccl', 'Ciclev10023436m.g' => 'ccl', 'CiPaw.08G103200' => 'cil', 'CiPaw.15G045600' => 'cil', 'CiPaw.15G045700' => 'cil', 'CiPaw.15G154500' => 'cil', 'ClCG06G013990' => 'cla', 'ClCG09G006860' => 'cla', 'ClCG11G014330' => 'cla', 'COL.COLO4_09141' => 'col', 'COL.COLO4_12004' => 'col', 'COL.COLO4_12005' => 'col', 'COL.COLO4_23451' => 'col', 'Cpa.g.sc115.45' => 'cpa', 'Cpa.g.sc36.185' => 'cpa', 'Cpa.g.sc485.4' => 'cpa', 'Cre03.g155001' => 'cre', 'Cre03.g207713' => 'cre', 'Cre10.g457150' => 'cre', 'Cre17.g698850' => 'cre', 'CsaV3_1G032200' => 'csa', 'CsaV3_3G047720' => 'csa', 'CsaV3_3G047730' => 'csa', 'CsaV3_7G028580' => 'csa', 'CSS0005078' => 'camsi', 'CSS0015327' => 'camsi', 'CSS0022327' => 'camsi', 'CSS0026477' => 'camsi', 'CSS0035277' => 'camsi', 'CSS0035433' => 'camsi', 'CSS0036701' => 'camsi', 'CSS0042087' => 'camsi', 'CSS0044600' => 'camsi', 'DCAR_002753' => 'dca', 'DCAR_009580' => 'dca', 'DCAR_010517' => 'dca', 'DCAR_019290' => 'dca', 'Dinv05858' => 'din', 'Dinv05859' => 'din', 'Dinv07074' => 'din', 'Dinv26458' => 'din', 'Dinv44806' => 'din', 'Dinv44807' => 'din', 'Duzib041G0801' => 'dzi', 'Duzib093G0557' => 'dzi', 'Duzib133G0154' => 'dzi', 'Duzib138G1494' => 'dzi', 'Duzib168G0491' => 'dzi', 'ECA232G0643' => 'eca', 'ECA232G4443' => 'eca', 'ECA236G4714' => 'eca', 'ECA247G0901' => 'eca', 'ECA247G3686' => 'eca', 'EL10Ac1g01143' => 'bvu', 'EL10Ac1g01144' => 'bvu', 'EL10Ac3g06307' => 'bvu', 'EL10Ac8g18322' => 'bvu', 'Eucgr.B00041' => 'egr', 'Eucgr.B00043' => 'egr', 'Eucgr.C02189' => 'egr', 'Eucgr.K03392' => 'egr', 'FAN04G0531' => 'fan', 'FAN04G2218' => 'fan', 'FAN07G0050' => 'fan', 'FAN08G1116' => 'fan', 'FAN08G3634' => 'fan', 'FAN12G0904' => 'fan', 'FAN13G1430' => 'fan', 'FAN13G2529' => 'fan', 'FAN15G0060' => 'fan', 'FAN18G1967' => 'fan', 'FAN18G3833' => 'fan', 'FAN20G1656' => 'fan', 'FAN22G1176' => 'fan', 'FAN24G3460' => 'fan', 'FAN27G1002' => 'fan', 'FvH4_2g23950' => 'fve', 'FvH4_2g23951' => 'fve', 'FvH4_4g06440' => 'fve', 'FvH4_5g36440' => 'fve', 'FvH4_5g36450' => 'fve', 'Glyma.02G270100' => 'gma', 'Glyma.03G151200' => 'gma', 'Glyma.04G098900' => 'gma', 'Glyma.05G221851' => 'gma', 'Glyma.06G100600' => 'gma', 'Glyma.06G213600' => 'gma', 'Glyma.08G028400' => 'gma', 'Glyma.13G027300' => 'gma', 'Glyma.19G153700' => 'gma', 'Glyma.20G056500' => 'gma', 'Glyma.20G056600' => 'gma', 'Gohir.A03G045800' => 'ghi', 'Gohir.A05G223500' => 'ghi', 'Gohir.A05G408400' => 'ghi', 'Gohir.A06G033300' => 'ghi', 'Gohir.A11G120800' => 'ghi', 'Gohir.D03G121400' => 'ghi', 'Gohir.D04G007100' => 'ghi', 'Gohir.D05G226200' => 'ghi', 'Gohir.D06G034200' => 'ghi', 'Gohir.D11G125900' => 'ghi', 'Gohir.D13G211742' => 'ghi', 'Gorai.003G128400' => 'gra', 'Gorai.007G134600' => 'gra', 'Gorai.009G233800' => 'gra', 'Gorai.010G037700' => 'gra', 'Gorai.012G008800' => 'gra', 'GSVIVG01009085001' => 'vvi', 'GSVIVG01009087001' => 'vvi', 'GSVIVG01011096001' => 'vvi', 'GSVIVG01035168001' => 'vvi', 'HanXRQChr05g0136381' => 'han', 'HanXRQChr09g0248901' => 'han', 'HanXRQChr09g0248911' => 'han', 'HanXRQChr12g0379801' => 'han', 'HanXRQChr15g0466461' => 'han', 'Haze_04745' => 'cav', 'Haze_18249' => 'cav', 'Haze_18250' => 'cav', 'Haze_18256' => 'cav', 'Haze_18258' => 'cav', 'Haze_18259' => 'cav', 'Haze_18261' => 'cav', 'Haze_19038' => 'cav', 'Hma1.2p1_0010F.1_g006720' => 'hma', 'Hma1.2p1_0257F.1_g103780' => 'hma', 'Hma1.2p1_0314F.1_g121900' => 'hma', 'Hma1.2p1_0593F.1_g185750' => 'hma', 'Hma1.2p1_0593F.1_g185790' => 'hma', 'Hma1.2p1_1613F.1_g293630' => 'hma', 'HPP92_005984' => 'vpl', 'HPP92_010796' => 'vpl', 'HPP92_010797' => 'vpl', 'HPP92_013798' => 'vpl', 'HPP92_016948' => 'vpl', 'HPP92_016951' => 'vpl', 'Hund09047' => 'sun', 'Hund16887' => 'sun', 'Hund18056' => 'sun', 'Hund26990' => 'sun', 'Hund26991' => 'sun', 'Hund26992' => 'sun', 'Lalb_Chr16g0390891' => 'lal', 'Lalb_Chr17g0347341' => 'lal', 'Lalb_Chr18g0048141' => 'lal', 'Lalb_Chr23g0270251' => 'lal', 'Lalb_Chr23g0270351' => 'lal', 'Lj1g0013086' => 'lja', 'Lj1g0013315' => 'lja', 'Lj2P1178T14' => 'lonja', 'Lj4C96G16' => 'lonja', 'Lj4C96G17' => 'lonja', 'Lj4g0023046' => 'lja', 'Lj5A709G9' => 'lonja', 'Lj6g0009212' => 'lja', 'LjContig00564g0017936' => 'lja', 'Lsat_1_v5_gn_1_3061' => 'lsa', 'Lsat_1_v5_gn_1_88641' => 'lsa', 'Lsat_1_v5_gn_8_70320' => 'lsa', 'Lsat_1_v5_gn_9_4440' => 'lsa', 'Lsat_1_v5_gn_9_73901' => 'lsa', 'Lsat_1_v5_gn_9_73921' => 'lsa', 'Manes.02G148900' => 'mes', 'Manes.05G073400' => 'mes', 'Manes.06G054000' => 'mes', 'Manes.18G025208' => 'mes', 'Manes.18G063352' => 'mes', 'Manes.18G063378' => 'mes', 'Mapoly0016s0146' => 'mpo', 'Mapoly0104s0038' => 'mpo', 'Mapoly0105s0013' => 'mpo', 'Mapoly0118s0006' => 'mpo', 'MBI02_g10704_MAGBIO' => 'mbi', 'MBI06_g22313_MAGBIO' => 'mbi', 'MBI11_g42115_MAGBIO' => 'mbi', 'MBI16_g18205_MAGBIO' => 'mbi', 'MBI17_g12003_MAGBIO' => 'mbi', 'MCO01G053' => 'mco', 'MCO08G089' => 'mco', 'MCO12G264' => 'mco', 'MD03G1268800' => 'mdo', 'MD08G1188800' => 'mdo', 'MD08G1188900' => 'mdo', 'MD11G1289600' => 'mdo', 'MD13G1236000' => 'mdo', 'MD15G1376600' => 'mdo', 'MD15G1376700' => 'mdo', 'MD15G1376800' => 'mdo', 'MD16G1240700' => 'mdo', 'MD16G1240800' => 'mdo', 'MD16G1240900' => 'mdo', 'MD16G1241000' => 'mdo', 'Medtr3g080120' => 'mtr', 'Medtr3g099500' => 'mtr', 'Medtr5g085880' => 'mtr', 'Medtr7g094560' => 'mtr', 'Medtr8g101490' => 'mtr', 'MELO3C003550.2' => 'cme', 'MELO3C015861.2' => 'cme', 'MELO3C017391.2' => 'cme', 'MELO3C030418.2' => 'cme', 'Migut.C00087' => 'egut', 'Migut.C00225' => 'egut', 'Migut.J00824' => 'egut', 'Migut.N00854' => 'egut', 'MSTRG.24986' => 'ama', 'MSTRG.5199' => 'ama', 'MSTRG.5953' => 'ama', 'Nitab4.5_0000017g0130' => 'nta', 'Nitab4.5_0000053g0170' => 'nta', 'Nitab4.5_0000786g0020' => 'nta', 'Nitab4.5_0004462g0010' => 'nta', 'Nitab4.5_0005108g0010' => 'nta', 'Nitab4.5_0006180g0010' => 'nta', 'Nitab4.5_0007392g0010' => 'nta', 'Nitab4.5_0008119g0010' => 'nta', 'Nn4g26174' => 'nnu', 'Nn5g29991' => 'nnu', 'Nn7g37838' => 'nnu', 'Nn8g41047' => 'nnu', 'Oeu000145.1' => 'oeu', 'Oeu000971.1' => 'oeu', 'Oeu000973.1' => 'oeu', 'Oeu019951.1' => 'oeu', 'Oeu029738.1' => 'oeu', 'Oeu029742.2' => 'oeu', 'Os01g0303200' => 'osa', 'Os05g0173800' => 'osa', 'Os05g0355133' => 'osa', 'Os05g0393700' => 'osa', 'Os08g0520900' => 'osa', 'Os09g0469400' => 'osa', 'Peaxi162Scf00030g02517' => 'pax', 'Peaxi162Scf00104g00022' => 'pax', 'Peaxi162Scf00104g00216' => 'pax', 'Peaxi162Scf00571g00528' => 'pax', 'Peaxi162Scf00889g00224' => 'pax', 'Peaxi162Scf00937g00013' => 'pax', 'PGR031G3469' => 'pgr', 'PGR044G0834' => 'pgr', 'PGR044G2410' => 'pgr', 'PGSC0003DMG400000954' => 'stu', 'PGSC0003DMG400017755' => 'stu', 'PGSC0003DMG400020699' => 'stu', 'PGSC0003DMG400030253' => 'stu', 'PGSC0003DMG401007274' => 'stu', 'PGSC0003DMG402007274' => 'stu', 'Phvul.001G148700' => 'pvu', 'Phvul.002G303600' => 'pvu', 'Phvul.005G040300' => 'pvu', 'Phvul.008G211900' => 'pvu', 'Phvul.009G033200' => 'pvu', 'Phvul.L003337' => 'pvu', 'Potri.002G100800' => 'ptr', 'Potri.002G100900' => 'ptr', 'Potri.002G219900' => 'ptr', 'Potri.006G070800' => 'ptr', 'Potri.018G132500' => 'ptr', 'Pp3c14_11860' => 'ppa', 'Pp3c1_27170' => 'ppa', 'Pp3c2_15510' => 'ppa', 'Pp3c3_14050' => 'ppa', 'Pp3c8_12820' => 'ppa', 'PRCOL_00002948' => 'pco', 'PRCOL_00003870' => 'pco', 'PRCOL_00006340' => 'pco', 'Prupe.1G067700' => 'ppe', 'Prupe.1G523400' => 'ppe', 'Prupe.1G523500' => 'ppe', 'Prupe.8G244800' => 'ppe', 'Psat0s1135g0080' => 'psa', 'Psat0s2339g0080' => 'psa', 'Psat0s5307g0040' => 'psa', 'Psat1g107360' => 'psa', 'Psat2g022120' => 'psa', 'Psat3g007840' => 'psa', 'Psat3g007920' => 'psa', 'Psat3g063520' => 'psa', 'Psat3g111360' => 'psa', 'Psat3g111480' => 'psa', 'Psat3g126200' => 'psa', 'Psat4g066520' => 'psa', 'Psat4g103760' => 'psa', 'Psat4g104960' => 'psa', 'Psat4g114320' => 'psa', 'Psat4g161960' => 'psa', 'Psat4g162000' => 'psa', 'Psat5g050480' => 'psa', 'Psat5g110840' => 'psa', 'Psat5g117000' => 'psa', 'Psat7g021920' => 'psa', 'Psat7g021960' => 'psa', 'PSO063G6530' => 'pso', 'PSO170G4311' => 'pso', 'PSO170G5814' => 'pso', 'PSO407G0091' => 'pso', 'PSO447G0146' => 'pso', 'PSO447G0261' => 'pso', 'PSO447G0299' => 'pso', 'PSO447G0331' => 'pso', 'PSO700G0091' => 'pso', 'PSO700G0312' => 'pso', 'QL02p002313' => 'qlo', 'QL02p002343' => 'qlo', 'QL02p059881' => 'qlo', 'QL11p009474' => 'qlo', 'QL11p009533' => 'qlo', 'QL12p022621' => 'qlo', 'RcHm_v2.0_Chr2g0148441' => 'rch', 'RcHm_v2.0_Chr4g0398221' => 'rch', 'RcHm_v2.0_Chr5g0038481' => 'rch', 'RcHm_v2.0_Chr6g0291581' => 'rch', 'RcHm_v2.0_Chr7g0238421' => 'rch', 'RcHm_v2.0_Chr7g0238491' => 'rch', 'Rhsim01G0276100' => 'rsi', 'Rhsim03G0268200' => 'rsi', 'Rhsim06G0077600' => 'rsi', 'Rhsim06G0077700' => 'rsi', 'Rhsim07G0245000' => 'rsi', 'Sabra02G0079000' => 'sbr', 'Sabra02G0079100' => 'sbr', 'Sabra02G0167800' => 'sbr', 'Sabra06G0052700' => 'sbr', 'Sabra18G0112200' => 'sbr', 'SalBow1G2928' => 'sbo', 'SalBow1G6883' => 'sbo', 'SalBow1G8524' => 'sbo', 'SalBow6G3178' => 'sbo', 'SalBow7G2792' => 'sbo', 'SalBow7G3028' => 'sbo', 'Sc01g0000810' => 'sci', 'Sc01g0000830' => 'sci', 'Sc01g0000840' => 'sci', 'Sc06g0006960' => 'sci', 'Sc14g0001410' => 'sci', 'Sed0000979' => 'sed', 'Sed0011558' => 'sed', 'Sed0017236' => 'sed', 'Sed0018981' => 'sed', 'Sed0020974' => 'sed', 'SEGI_02786' => 'sgi', 'SEGI_09324' => 'sgi', 'SEGI_11733' => 'sgi', 'SEGI_18178' => 'sgi', 'SEGI_21844' => 'sgi', 'SEGI_24667' => 'sgi', 'SEGI_27036' => 'sgi', 'SEGI_30223' => 'sgi', 'SEGI_30289' => 'sgi', 'SEGI_31232' => 'sgi', 'SEGI_36321' => 'sgi', 'SGA_v2.0_scaffold31G12733' => 'sas', 'SGA_v2.0_scaffold74G24556' => 'sas', 'SGA_v2.0_scaffold74G24561' => 'sas', 'SGA_v2.0_scaffold74G24565' => 'sas', 'SGA_v2.0_scaffold74G24568' => 'sas', 'SGA_v2.0_scaffold8G04456' => 'sas', 'SHI20572' => 'shi', 'SHI20575' => 'shi', 'SHI20581' => 'shi', 'SHI20583' => 'shi', 'SMO134G0184' => 'smo', 'SMO143G0219' => 'smo', 'SMO171G0036' => 'smo', 'SMO356G0157' => 'smo', 'SMO367G0997' => 'smo', 'Solyc04g074720.3' => 'sly', 'Solyc06g009220.4' => 'sly', 'Solyc07g014590.4' => 'sly', 'Solyc09g064800.3' => 'sly', 'Solyc12g057130.3' => 'sly', 'Sopen04g029690' => 'spe', 'Sopen06g003990' => 'spe', 'Sopen07g005470' => 'spe', 'Sopen09g026500' => 'spe', 'Sopen12g029790' => 'spe', 'Sp1g02300' => 'spa', 'Sp1g25380' => 'spa', 'Sp4g22240' => 'spa', 'Sp6g08550' => 'spa', 'TAR362G0069' => 'tar', 'TAR381G1087' => 'tar', 'TAR381G1146' => 'tar', 'TAR625G0921' => 'tar', 'THA.LOC104801221' => 'tha', 'THA.LOC104816575' => 'tha', 'THA.LOC104816596' => 'tha', 'THA.LOC104826981' => 'tha', 'Thecc.01G283700' => 'tca', 'Thecc.08G101600' => 'tca', 'Thecc.08G101700' => 'tca', 'Thecc.09G189800' => 'tca', 'Thhalv10006673m.g' => 'esa', 'Thhalv10006762m.g' => 'esa', 'Thhalv10016275m.g' => 'esa', 'Thhalv10028452m.g' => 'esa', 'TPR.G14449' => 'tpr', 'TPR.G18118' => 'tpr', 'TPR.G24224' => 'tpr', 'TPR.G25465' => 'tpr', 'TPR.G34506' => 'tpr', 'TPR.G39639' => 'tpr', 'TPR.G39641' => 'tpr', 'TWI32G1029' => 'twi', 'TWI56G0493' => 'twi', 'TWI56G0632' => 'twi', 'TWI59G0008' => 'twi', 'unitig_46.g17923' => 'ugi', 'unitig_578.g15826' => 'ugi', 'unitig_578.g16559' => 'ugi', 'unitig_747.g21274' => 'ugi', 'vmacro14935' => 'vma', 'vmacro21287' => 'vma', 'vmacro21288' => 'vma', 'vmacro21290' => 'vma', 'vmacro22289' => 'vma', 'VMungo0251G0311' => 'vmu', 'VMungo0540G1065' => 'vmu', 'VMungo0647G2280' => 'vmu', 'VMungo1309G1798' => 'vmu', 'VMungo1383G3283' => 'vmu', 'Zm00001eb086090' => 'zma', 'Zm00001eb101250' => 'zma', 'Zm00001eb130190' => 'zma', 'Zm00001eb174590' => 'zma', 'Zm00001eb180610' => 'zma', 'Zm00001eb199510' => 'zma', 'Zm00001eb237800' => 'zma', 'Zm00001eb286080' => 'zma', 'Zm00001eb287400' => 'zma', 'Zm00001eb288650' => 'zma', 'Zm00001eb315710' => 'zma', 'Zm00001eb415340' => 'zma' ) $gf_id = 'HOM05D001026' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001026' ) $data_identifier = 'HOM05D001026' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 5, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 9, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 8, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 5, 'ccan' => (int) 8, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 6, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 8, 'hma' => (int) 6, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 5, 'lja' => (int) 5, 'lonja' => (int) 4, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 5, 'mco' => (int) 3, 'mdo' => (int) 12, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 8, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 5, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 22, 'pso' => (int) 10, 'qlo' => (int) 6, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 11, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 4, 'ugi' => (int) 4, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb415340' $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